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#3 Return sorted, normalized mutations
A user pointed out that it would be useful to have mutations returned in order of their sequence positions, and normalized. (So if L42T is extracted four times from a single piece of text, it only shows up once in the output once for that input text.) This should be accessible via a flag (e.g., -n / --normalize).
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The perl version prints these in the order in which they occur in the text, not by sequence position. The sequence position order might be complicated if more than one protein sequence is being discussed. I think ordering by position should be a separate option.